Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   P7V53_RS28480 Genome accession   NZ_CP123228
Coordinates   6011002..6011853 (+) Length   283 a.a.
NCBI ID   WP_280152855.1    Uniprot ID   -
Organism   Piscinibacter sp. XHJ-5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6006002..6016853
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  P7V53_RS28455 rplU 6006054..6006365 (-) 312 WP_280156638.1 50S ribosomal protein L21 -
  P7V53_RS28460 ispB 6006589..6007530 (+) 942 WP_280152852.1 octaprenyl diphosphate synthase -
  P7V53_RS28470 pilB 6008002..6009720 (+) 1719 WP_280152853.1 type IV-A pilus assembly ATPase PilB Machinery gene
  P7V53_RS28475 pilC 6009782..6011005 (+) 1224 WP_280152854.1 type II secretion system F family protein Machinery gene
  P7V53_RS28480 pilD 6011002..6011853 (+) 852 WP_280152855.1 A24 family peptidase Machinery gene
  P7V53_RS28485 coaE 6011870..6012502 (+) 633 WP_280152856.1 dephospho-CoA kinase -
  P7V53_RS28490 zapD 6012579..6013334 (+) 756 WP_280152857.1 cell division protein ZapD -
  P7V53_RS28495 - 6013346..6013549 (+) 204 WP_280152858.1 DNA gyrase inhibitor YacG -
  P7V53_RS28500 - 6013562..6014482 (-) 921 WP_280152859.1 caspase family protein -
  P7V53_RS28505 groES 6014725..6015015 (+) 291 WP_280152860.1 co-chaperone GroES -
  P7V53_RS28510 groL 6015078..6016724 (+) 1647 WP_280152861.1 chaperonin GroEL -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30241.94 Da        Isoelectric Point: 9.2660

>NTDB_id=820106 P7V53_RS28480 WP_280152855.1 6011002..6011853(+) (pilD) [Piscinibacter sp. XHJ-5]
MTPEFSQVLLSPWLLGLLGLCIGSFLNVVIHRLPQMLERGWKLDSAEMLGVKVEVPPRLTLSKPRSRCPSCGHGIAWHEN
IPVLSWLRLGGKCSACKAPISPRYPSVEILTGALFAATAWRFGAQPTTVLWCGFVGTLVALAGIDWDTTLLPDNVTLPLL
WAGLVAAALGWTIPLSSSLWGAVGGYLSLWTVYWIFKHATGKEGMGYGDFKLLSALGAWLGVQMLLPVVLGASLLGAVVG
IGMKLTGALREGRYVPFGPFLAGAGVVVMLAGPQRVLGWLGWA

Nucleotide


Download         Length: 852 bp        

>NTDB_id=820106 P7V53_RS28480 WP_280152855.1 6011002..6011853(+) (pilD) [Piscinibacter sp. XHJ-5]
GTGACGCCCGAGTTCTCCCAGGTCCTGCTGTCGCCGTGGCTGCTGGGACTGCTCGGACTGTGCATCGGCAGCTTCCTCAA
CGTGGTGATCCACCGCCTGCCGCAGATGCTGGAGCGCGGCTGGAAGCTCGACAGCGCCGAGATGCTCGGCGTGAAGGTCG
AGGTGCCCCCCCGGCTGACGCTGTCGAAGCCACGCTCCCGCTGTCCATCGTGCGGGCACGGGATCGCCTGGCACGAGAAC
ATCCCCGTGCTGAGCTGGCTGCGCCTGGGCGGCAAGTGTTCCGCCTGCAAGGCGCCCATCTCGCCGCGATATCCGTCCGT
CGAGATCCTCACCGGCGCGTTGTTCGCCGCCACCGCCTGGCGTTTCGGAGCGCAGCCCACCACGGTGCTGTGGTGCGGCT
TCGTCGGCACGCTCGTGGCGCTGGCCGGCATCGACTGGGACACGACGCTGCTGCCGGACAACGTCACCTTGCCGCTGCTG
TGGGCGGGCCTGGTCGCCGCGGCGCTGGGATGGACCATTCCCCTGAGCTCCTCGCTCTGGGGCGCCGTGGGCGGCTACCT
CTCCTTGTGGACCGTGTACTGGATCTTCAAGCACGCGACCGGCAAGGAAGGCATGGGTTACGGCGATTTCAAGCTGCTCT
CGGCGCTGGGTGCCTGGCTGGGGGTTCAGATGCTCCTGCCCGTCGTGCTGGGCGCATCGTTGCTCGGCGCTGTCGTCGGC
ATCGGCATGAAGCTCACCGGTGCGCTGCGTGAAGGACGCTACGTGCCGTTCGGGCCGTTCCTCGCCGGCGCAGGCGTCGT
CGTGATGCTGGCCGGTCCGCAGCGGGTGCTCGGCTGGCTGGGCTGGGCCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilD Vibrio cholerae strain A1552

50.182

97.173

0.488
  pilD Vibrio campbellii strain DS40M4

49.275

97.527

0.481
  pilD Acinetobacter baumannii D1279779

47.97

95.76

0.459
  pilD Acinetobacter nosocomialis M2

47.601

95.76

0.456
  pilD Neisseria gonorrhoeae MS11

43.525

98.233

0.428